U.S. patents available from 1976 to present.
U.S. patent applications available from 2005 to present.

Method of eliminating inhibitory/instability regions of mRNA

Patent 6794498 Issued on September 21, 2004. Estimated Expiration Date: Icon_subject August 31, 2021. Estimated Expiration Date is calculated based on simple USPTO term provisions. It does not account for terminal disclaimers, term adjustments, failure to pay maintenance fees, or other factors which might affect the term of a patent.

Patent References

Manufacture and expression of structural genes
Patent #: 4652639
Issued on: 03/24/1987
Inventor: Stabinsky

Primate hematopoietic growth factors IL-3 and pharmaceutical compositions
Patent #: 4959455
Issued on: 09/25/1990
Inventor: Clark, et al.

RE33653

Fusion proteins comprising GM-CSF and IL-3
Patent #: 5073627
Issued on: 12/17/1991
Inventor: Curtis, et al.

Codon pair utilization
Patent #: 5082767
Issued on: 01/21/1992
Inventor: Hatfield, et al.

Method of eliminating inhibitory/ instability regions of mRNA
Patent #: 5965726
Issued on: 10/12/1999
Inventor: Pavlakis, et al.

Nucleic acid constructs containing HIV genes with mutated inhibitory/instability regions and methods of using same
Patent #: 5972596
Issued on: 10/26/1999
Inventor: Pavlakis, et al.

Method of eliminating inhibitory/instability regions from mRNA
Patent #: 6174666
Issued on: 01/16/2001
Inventor: Pavlakis, et al.

Method of eliminating inhibitory/instability regions of mRNA
Patent #: 6291664
Issued on: 09/18/2001
Inventor: Pavlakis, et al.

Method of eliminating inhibitory/instability regions of mRNA Patent #: 6414132
Issued on: 07/02/2002
Inventor: Pavlakis, et al.

Inventors

Assignee

Application

No. 09943722 filed on 08/31/2001

US Classes:

536/22.1, N-glycosides, polymers thereof, metal derivatives (e.g., nucleic acids, oligonucleotides, etc.)435/5, Involving virus or bacteriophage435/6, Involving nucleic acid435/41, MICRO-ORGANISM, TISSUE CELL CULTURE OR ENZYME USING PROCESS TO SYNTHESIZE A DESIRED CHEMICAL COMPOUND OR COMPOSITION435/7.1, Involving antigen-antibody binding, specific binding protein assay or specific ligand-receptor binding assay435/69.1, Recombinant DNA technique included in method of making a protein or polypeptide435/91.1, Polynucleotide (e.g., nucleic acid, oligonucleotide, etc.)435/70.3, Animal tissue cell culture435/91.2, Acellular exponential or geometric amplification (e.g., PCR, etc.)536/23.1, DNA or RNA fragments or modified forms thereof (e.g., genes, etc.)536/24.3, Probes for detection of specific nucleotide sequences or primers for the synthesis of DNA or RNA536/24.31, Probes for detection of animal nucleotide sequences536/24.32, Probes for detection of microbial nucleotide sequences536/24.33Primers

Examiners

Primary: Siew, Jeffrey

Attorney, Agent or Firm

Foreign Patent References

  • 0 335 635 EP 10/01/1989
  • 0 345 242 EP 12/01/1989
  • WO 9011092 WO 10/01/1990

International Classes

C07H 1900
C07H 2100
C07H 2102
C07H 2104
C12Q 168

Abstract

A method of locating an inhibitory/instability sequence or sequences within the coding region of an mRNA and modifying the gene encoding that mRNA to remove these inhibitory/instability sequences by making clustered nucleotide substitutions without altering the coding capacity of the gene is disclosed. Constructs containing these mutated genes and host cells containing these constructs are also disclosed. The method and constructs are exemplified by the mutation of a Human Immunodeficiency Virus-1 Rev-dependent gag gene to a Rev-independent gag gene. Constructs useful in locating inhibitory/instability sequences within either the coding region or the 3′ untranslated region of an mRNA are also disclosed. The exemplified constructs of the invention may also be useful in HIV-1 immunotherapy and immunoprophylaxis.

Other References

  • B.A. Bunnell et al., “A Dominant Negative Mutation in Two Proteins Created by Ectopic Expression of an Au-Rich 3′ Untranslated Region”, Somataic Cell and Mol. Genet. 16:151-162 (1990).
  • D. Caput et al., “Identification of a common nucleotide sequence in the 3′-untranslated region of mRNA molecules specifying inflammatory mediators”, Proc. Natl. Acad. Sci. 83:1670-1674 (1986).
  • P. Carter-Muenchau and R. Wolf, “Growth-rate-dependent regulation of 6-phosphogluconate dehydrogenase level mediated by an anti-Shine-Dalgarno sequence located within the Escherichia coli gnd structural gene”, Proc. Natl. Acad. Sci., USA, 86:1138-1142 (1989).
  • A.W. Cochrane et al., “Identification and Characterization of Intragenic Sequences Which Repress Human Immunodeficiency Virus Structural Gene Expression”, J. Virol. 65:5305-5313 (1991).
  • M.D. Cole and S.E. Mango, cis-Acting Determinants of c-myc mRNA Stability, Enzyme 44:167-180 (1990).
  • M.D. Edge et al., “Total synthesis of a human leukocyte interferon gene”, Nature 292:756-762 (1981).
  • M. Emerman, “The rev Gene Product of the Human Immunodeficiency Virus Affects Envelope-Specific RNA Localization”, Cell 57:1155-1165 (1989).
  • B. Felber et al., “rev protein of human immunodeficiency virus type 1 affects the stability and transport of the viral mRNA”, Proc. Natl. Acad. Sci. USA 86:1495-1499 (1989).
  • M. Hadzopoulou-Cladaras et al., “The rev (trs/art) Protein of Human Immunodeficiency Virus Type 1 Affects Viral mRNA and Protein Expression via a cis-Acting Sequence in the env Region”, J. Virol. 63:1265-1274 (1989).
  • M.W. Hentze, “Determinants and regulation of cytoplasmic mRNA stability in eukaryotic cells”, Biochem. Biophys. Acta 1090: 281-292 (1991).
  • E. Jay et al., “Chemical Synthesis of a Biologically Active Gene for Human Immune Interferon-γ”, J. Biol. Chem. 259:6311-6317 (1984).
  • T. R. Jones and M.D. Cole, “Rapid Cytoplasmic Turnover of c-myc mRNA: Requirement of the 3′ Untranslated Sequences”, Mol. Cell Biol. 7:4513-4521 (1987).
  • R. Kamen et al., “A Novel Mechanism of Post Transcriptional, Sequence-Specific Regulation of mRNA Stability”, J. Cell Bio. Suppl. 10D (1986):152 (Abst. No. 0210).
  • D.M. Koeller et al., “Translation and the stability of mRNAs encoding the transferrin receptor and c-fos”, Proc. Natl. Acad. Sci. USA, 88:7778-7782 (1991).
  • V. Kruys et al., “Constitutive activity of the tumor necrosis factor promoter is canceled by the 3′ untranslated region in nonmacrophage cell lines; a trans-dominant factor overcomes this suppressive effect”, Proc. Natl. Acad. Sci. USA, 89:673-677 (1992).
  • T.A. Kunkel, “Rapid and efficient site-specific mutagenesis without phenotypic selection”, Proc. Natl. Acad. Sci. USA, 82:488-492 (1985).
  • I.A. Laird-Offringa et al., “Rapid c-myc mRNA degradation does not require (A+U)-rich sequences or complete translation of the mRNA”, Nucleic Acids Res. 19:2387-2394 (1991).
  • M.D. Lundigran et al., “Transcribed sequences of the Escherichia coli btuB gene control its expression and regulation by vitamin B12”, Proc. Natl. Acad. Sci. USA, 88:1479-1483 (1991).
  • F. Maldarelli et al., “Identification of Posttranscriptionally Active Inhibitory Sequences in Human Immunodeficiency Virus Type 1 RNA: Novel Level of Gene Regulation”, J. Virol. 65:5732-5743 (1991).
  • K.P. Nambiar et al., “Total synthesis and Cloning of a Gene Coding for the Ribonuclease S Protein”, Science 223:1299-1301 (1984).
  • R. Parker and A. Jacobson, “Translation and a 42-nucleotide segment within the coding region of the mRNA encoded by the MATα1 gene are involved in promoting rapid mRNA decay in yeast”, Proc. Natl. Acad. Sci. USA, 87:2780-2784 (1990).
  • C.A. Rosen, “Intragenic cis-acting art gene-responsive sequences of the human immunodeficiency virus”, Proc. Natl. Acad. Sci., USA, 85:2071-2075 (1988).
  • S. Schwartz et al., “Distinct RNA Sequences in the gag region of Human Immunodeficiency Virus Type 1 Decrease RNA Stability and Inhibit Expression in the Absence of Rev Protein”, J. Virol. 66:150-159 (1992).
  • G. Shaw and R. Kamen, “A Conserved AU Sequence from the 3′ Untranslated Region of GM-CSF mRNA Mediates Selective mRNA Degradation”, Cell 46:659-667 (1986).
  • G. Shaw and R. Kamen, “A Conserved AU Sequence from the 3′ Untranslated Region of GM-CSF mRNA Mediates Selective mRNA Degradation”, J. Cell. Bio. Suppl. 11C (1987):132 (Abst. No. L541).
  • A.-B. Shyu et al., “Two distinct destabilizing elements in the c-fos message trigger deadenylation as a first step in rapid mRNA decay”, Gen. & Devel. 5:221-231 (1991).
  • C.M. Stoltzfus and S.J. Fogarty, “Multiple Regions in the Rous Sarcoma Virus src Gene Intron Act in cis To Affect the Accumulation of Unspliced RNA”, J. Virol. 63:1669-1676 (1989).
  • T. Wilson and R. Treisman, “Removal of poly(A) and consequent degradation of c-fos mRNA facilitated by 3′ AU-rich sequences”, Nature 336:396-399 (1988).
  • R. Wisdom and W. Lee, “The protein-coding region of c-myc mRNA contains a sequence that specifies rapid mRNA turnover and induction by protein synthesis inhibitors”, Gen. & Devel. 5:232-243 (1991).
  • D.H. Wreschner and G. Rechavi, “Differential mRNA stability to reticulocyte ribonucleases correlates with 3′ non-coding (U)nA sequences”, Eur. J. Biochem. 172:333-340 (1988).
  • Schwartz et al., “Mutational Inactivation of an Inhibitory Sequence in HIV-1 Results in Rev-independent gag Expression”, Journal of Virology, vol. 66, 12:7176-7182 (1992) (Published after filing date of 07/858,747 priority application.).
  • Copy of PCT Search Report.
  • Albert B Sabin, “Improbability of effective vaccination against human immunodeficiency virus because of its intracellular transmission and rectal portal of entry”, Proc. Natl. Acad. Sci. USA, 89:8852-8855 (Sep. 1992) (See whole document, especially abstract and right column of p. 8854) (“Reference 1”).
  • Saladin Osmanov et al., “HIV-1 Genetic Variability: Implications for the Development of HIV Vaccines”, Antibiotics and Chemotherapy, 48:30-38 (1996) (See whole document, especially pp. 35-36) (“Reference 2”).
  • Kavita S. Lole, et al., “Full-Length Human Immunodeficiency Virus Type 1 Genomes from Subtype C-Infected Seroconverters in India, with Evidence of Intersubtype Recombination”, Journal of Virology, 73:152-160 (Jan. 1999) (See whole document, especially abstract) (“Reference 3”).
  • “Nikkei Biotechnology Annual Report '98”, Nikkei Biotech, (Nov. 30, 1997), Nikkei Business Publications, Inc., p. 214 (English translation of table on p. 214, lines 30-35 entitled “The recent stream of research and development on AIDS”) (“Reference 4”).
  • “Nikkei Biotechnology Annual Report '97”, Ed. Nikkei Biotech, (Nov. 30, 1996), Nikkei Business Publications, Inc., p. 246 (English translation of a table on p. 246, lines 43-46 entitled “The recent stream of biotechnological research on AIDS”) (“Reference 6”).
  • “Nikkei Biotechnology Annual Report '99”, Ed. Nikkei Biotech, (Nov. 30, 1998), Nikkei Business Publications, Inc., p. 79 (English translation of table on p. 79, lines 14-17 entitled “The main stream of research and development on AIDS”) (“Reference 7”).
  • R.I. Connor, et al., “Immunological and Virological Analyses of Persons Infected by Human Immunodeficiency Virus Type 1 while Participating in Trials of Recombinant gp120 Subunit Vaccines”, Journal of Virology, 72:1552-1576 (Feb. 1998) (See whole document, especially abstract) (“Reference 5”).
  • K.-C. Chou, et al., “Diagrammatization of Codon Usge in 339 Human Immunodeficiency Virus Proteins and Its Biological Implication”, AIDS Research and Human Retroviruses, 8:1967-1976 (1992).
  • J. Cohen, et al., (abstract) “Expression of the HIV-1 env (gp160) in the yeast Saccaromyces cerevisiae via expression/secretion vectors and partial characterization of the gene product”, in Modern Approaches New Vaccines, 64 (1988).
  • B. Coulombe, et al., “Expression of a synthetic human interferon-α1 gene with modified nucleotide sequence in mammalian cells”, Gene, 46:89-95 (1986).
  • D. M. D'Agostino, et al., “The Rev Protein of Human Immunodeficiency Virus Type 1 Promotes Polysomal Association and Translation of gag/pol and vpu/env mRNAs”, Molecular and Cellular Biology, 12:1375-1386 (1992).
  • M.B. Feinberg, et al., “HTLV-III Expression and Production Involve Complex Regulation at the Levels of Splicing and Translation of Viral RNA”, Cell, 46:807-817 (1986).
  • E. Fortkamp, et al., “Cloning and Expression in Escherichia coli of a Synthetic DNA for Hirudin, the Blood Coagulation Inhibitor in the Leech”, DNA, 5:511-517 (1986).
  • Grantham et al., “AIDS virus and HTLV-I differ in codon choices”, Nature 319:727-728 (1986).
  • M.-L. Hammarskjöld, et al., “Regulation of Human Immunodeficiency Virus env Expression by the rev Gene Product,” Journal of Virology, 63:1959-1966 (1989).
  • R.A. Hernan, et al., “Human Hemoglobin Expression in Escherichia coli: Importance of Optimal Codon Usage”, Biochemistry 31:8619-8628 (1992).
  • H. Kamiya, et al., “Transformation of NIH3T3 Cells with Synthetic c-Ha-ras Genes”, Jpn. J. Cancer Res. 80:200-203 (1989).
  • J. Kypr, et al., “Unusual codon usage of HIV”, Nature 327:20 (1987).
  • J.R. McCarrey, “Molecular evolution of the human Pgk-2 retroposon”, Nucleic Acids Res. 18:949-955 (1990).
  • T. Nakamura, et al., “Two types of linkage between codon usage and gene-expression levels”, FEBS Letters 289:123-125 (1991).
  • C.B. Newgard, et al., “Sequence analysis of the cDNA encoding human liver glycogen phosphorylase reveals tissue-specific codon usage”, Proc. Natl. Acad. Sci. USA 83:8132-8136 (1986).
  • S.H. Rangwala, et al., “High-level production of active HIV-1 protease in Escherichia coli”, Gene 122:263-269 (1992).
  • M. Robinson, et al., “Codon usage can affect efficiency of translation of genes in Escherichia coli”, Nucleic Acids Research 12:6663-6671 (1984).
  • C.A. Scorer, et al., “The intracellular production and secretion of HIV-1 envelope protein in the methylotrophic yeast Pichia pastoris”, Gene 136:111-119 (1993).
  • R. Seetharam, et al., “Mistranslation in IGF-1 During Over-Expression of the Protein in Escherichia coli Using a Synthetic Gene Containing Low Frequency Codons,” Biochem. Biophys. Res. Comm. 155:518-523 (1988).
  • P.M. Sharp, “What can AIDS virus codon usage tell us ?”, Nature 324:114 (1986).
  • P.M. Sharp, et al., “Codon usage pataterns in Escherichia coli, Bacillus subtilis, Saccharomyces cerevisiae, Schizosaccharomyces pombe, Drosophila melanogaster and Homo sapiens; a review of the considerable within-species diversity”, Nucleic Acids Res. 16:8207-8211 (1988).
  • F.J. van Hemert, et al., “The Tendency of Lentiviral Open Reading Frames to Become A-Rich: Constraints Imposed by Viral Genome Organization and Cellular tRNA Availability”, Journal of Molecular Evolution, 41:132-140 (1995).
  • D.P. Williams, et al., “Design, synthesis and expression of a human interleukin-2 gene incorporating the codon usage bias found in highly expressed Escherichia coli genes”, Nucleic Acids Research 16:10453-10467 (1988).
  • S. Zhang, et al., “Low-usage condons in Escherichia coli, yeast, fruit fly and primates”, Gene, 105:61-72 (1991).
PatentsPlus Images
Enhanced PDF formats
loading...
PatentsPlus: add to cart
PatentsPlus: add to cartSearch-enhanced full patent PDF image
$9.95more info
 
Sign InRegister
Username  
Password   
forgot password?